Kcnd3 (potassium voltage-gated channel subfamily D member 3) - Rat Genome Database

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Gene: Kcnd3 (potassium voltage-gated channel subfamily D member 3) Rattus norvegicus
Analyze
Symbol: Kcnd3
Name: potassium voltage-gated channel subfamily D member 3
RGD ID: 68394
Description: Enables voltage-gated potassium channel activity. Contributes to A-type (transient outward) potassium channel activity. Involved in cellular response to BMP stimulus; potassium ion export across plasma membrane; and potassium ion import across plasma membrane. Located in several cellular components, including caveola; neuronal cell body; and perinuclear endoplasmic reticulum. Is integral component of plasma membrane. Part of voltage-gated potassium channel complex. Human ortholog(s) of this gene implicated in Brugada syndrome 9 and spinocerebellar ataxia type 19/22. Orthologous to human KCND3 (potassium voltage-gated channel subfamily D member 3); PARTICIPATES IN acebutolol pharmacodynamics pathway; adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway; amiodarone pharmacodynamics pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: Kv4.3; LOC684161; potassium channel, voltage-gated Shal-related subfamily D, member 3; potassium voltage gated channel, Shal-related family, member 3; potassium voltage-gated channel, Shal-related subfamily, member 3; similar to Potassium voltage-gated channel subfamily D member 3 (Voltage-gated potassium channel subunit Kv4.3); voltage-gated potassium channel subunit Kv4.3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22192,937,950 - 193,155,345 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl2207,923,775 - 208,140,727 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02207,923,775 - 208,140,727 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02227,345,052 - 227,561,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42200,709,778 - 200,924,575 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13128,828,320 - 128,840,436 (+)NCBI
Celera2185,602,165 - 185,617,489 (+)NCBICelera
Cytogenetic Map2q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
acebutolol pharmacodynamics pathway  (ISO)
adrenergic beta receptor agonist and beta-blocker pharmacodynamics pathway  (ISO)
amiodarone pharmacodynamics pathway  (ISO)
amlodipine pharmacodynamics pathway  (ISO)
atenolol pharmacodynamics pathway  (ISO)
betaxolol pharmacodynamics pathway  (ISO)
bisoprolol pharmacodynamics pathway  (ISO)
bupranolol drug pathway  (ISO)
bupranolol pharmacodynamics pathway  (ISO)
carvedilol pharmacodynamics pathway  (ISO)
diltiazem pharmacodynamics pathway  (ISO)
disopyramide pharmacodynamics pathway  (ISO)
dobutamine pharmacodynamics pathway  (ISO)
esmolol pharmacodynamics pathway  (ISO)
excitatory synaptic transmission pathway  (TAS)
flecainde pharmacodynamics pathway  (ISO)
fosphenytoin pharmacodynamics pathway  (ISO)
ibutilide pharmacodynamics pathway  (ISO)
isoprenaline pharmacodynamics pathway  (ISO)
isradipine pharmacodynamics pathway  (ISO)
levobunolol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
long term potentiation  (TAS)
metoprolol pharmacodynamics pathway  (ISO)
mexiletine pharmacodynamics pathway  (ISO)
nadolol pharmacodynamics pathway  (ISO)
nebivolol pharmacodynamics pathway  (ISO)
nifedipine pharmacodynamics pathway  (ISO)
nimodipine pharmacodynamics pathway  (ISO)
nisoldipine pharmacodynamics pathway  (ISO)
nitrendipine pharmacodynamics pathway  (ISO)
penbutolol pharmacodynamics pathway  (ISO)
phenytoin pharmacodynamics pathway  (ISO)
pindolol pharmacodynamics pathway  (ISO)
procainamide pharmacodynamics pathway  (ISO)
propranolol pharmacodynamics pathway  (ISO)
quinidine pharmacodynamics pathway  (ISO)
sotalol pharmacodynamics pathway  (ISO)
timolol pharmacodynamics pathway  (ISO)
verapamil pharmacodynamics pathway  (ISO)

References

References - curated
1. Alday A, etal., Channels (Austin). 2010 May-Jun;4(3):168-78.
2. Bekar LK, etal., J Neurophysiol. 2005 Mar;93(3):1699-709.
3. Chavira-Suarez E, etal., Biochem Biophys Res Commun. 2011 Jan 14;404(2):678-83. doi: 10.1016/j.bbrc.2010.12.041. Epub 2010 Dec 11.
4. Dabrowska J and Rainnie DG, Neuroscience. 2010 Dec 15;171(3):721-33. doi: 10.1016/j.neuroscience.2010.09.011. Epub 2010 Sep 16.
5. Deschenes I, etal., J Mol Cell Cardiol. 2008 Sep;45(3):336-46. Epub 2008 May 12.
6. Dixon JE, etal., Circ Res 1996 Oct;79(4):659-68.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. Kim J, etal., J Physiol. 2005 Nov 15;569(Pt 1):41-57. Epub 2005 Sep 1.
9. Kobayashi T, etal., J Mol Cell Cardiol. 2003 Sep;35(9):1073-82.
10. Kuryshev YA, etal., Am J Physiol Cell Physiol. 2000 May;278(5):C931-41.
11. MGD data from the GO Consortium
12. NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. Ohya S, etal., FEBS Lett 1997 Dec 22;420(1):47-53.
14. Ohya S, etal., Life Sci 2001 Mar 2;68(15):1703-16.
15. OMIM Disease Annotation Pipeline
16. Pioletti M, etal., Nat Struct Mol Biol. 2006 Nov;13(11):987-95. Epub 2006 Oct 22.
17. Pipeline to import SMPDB annotations from SMPDB into RGD
18. RGD automated data pipeline
19. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20. RGD automated import pipeline for gene-chemical interactions
21. Serodio P, etal., J Neurophysiol 1996 May;75(5):2174-9.
22. Shiina Y, etal., Sci Rep. 2016 May 20;6:26290. doi: 10.1038/srep26290.
23. Song M, etal., J Biol Chem 2001 Aug 24;276(34):31883-90.
24. Sun B, etal., Biochem Biophys Res Commun. 2013 Jul 12;436(4):591-4. doi: 10.1016/j.bbrc.2013.05.113. Epub 2013 Jun 6.
25. Takimoto K, etal., Circ Res 1997 Oct;81(4):533-9.
26. Tseng GN Cardiovasc Res 1999 Jan;41(1):16-8.
27. Wang S, etal., Biochem Biophys Res Commun. 2002 Jul 12;295(2):223-9.
28. Wickenden AD, etal., Am J Physiol 1999 May;276(5 Pt 2):H1599-607.
29. You T, etal., Int J Mol Med. 2015 Jul;36(1):309-15. doi: 10.3892/ijmm.2015.2223. Epub 2015 May 26.
Additional References at PubMed
PMID:9001401   PMID:10479680   PMID:10676964   PMID:11805342   PMID:12006572   PMID:12911756   PMID:12928444   PMID:15342638   PMID:15356203   PMID:16176357   PMID:16271805   PMID:16553778  
PMID:16648177   PMID:17122053   PMID:17314290   PMID:17855600   PMID:18270591   PMID:18495361   PMID:18515646   PMID:18603586   PMID:18789946   PMID:19171649   PMID:19213956   PMID:19912787  
PMID:20044444   PMID:20861393   PMID:21349352   PMID:21451062   PMID:21493962   PMID:22245500   PMID:22266351   PMID:22700470   PMID:24037673   PMID:24845726   PMID:25917026   PMID:26721612  
PMID:28566490   PMID:29313436   PMID:30462989   PMID:31935048   PMID:33254430   PMID:33472822  


Genomics

Comparative Map Data
Kcnd3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.22192,937,950 - 193,155,345 (+)NCBImRatBN7.2
Rnor_6.0 Ensembl2207,923,775 - 208,140,727 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.02207,923,775 - 208,140,727 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.02227,345,052 - 227,561,680 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42200,709,778 - 200,924,575 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.13128,828,320 - 128,840,436 (+)NCBI
Celera2185,602,165 - 185,617,489 (+)NCBICelera
Cytogenetic Map2q34NCBI
KCND3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1111,770,662 - 111,989,668 (-)EnsemblGRCh38hg38GRCh38
GRCh381111,770,662 - 111,989,668 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371112,313,284 - 112,532,290 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361112,119,977 - 112,333,300 (-)NCBINCBI36hg18NCBI36
Build 341112,030,495 - 112,243,819NCBI
Celera1110,565,074 - 110,778,378 (-)NCBI
Cytogenetic Map1p13.2NCBI
HuRef1110,189,856 - 110,403,378 (-)NCBIHuRef
CHM1_11112,433,439 - 112,646,758 (-)NCBICHM1_1
Kcnd3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393105,359,206 - 105,581,318 (+)NCBIGRCm39mm39
GRCm39 Ensembl3105,359,646 - 105,581,318 (+)Ensembl
GRCm383105,451,890 - 105,674,002 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3105,452,330 - 105,674,002 (+)EnsemblGRCm38mm10GRCm38
MGSCv373105,255,248 - 105,476,920 (+)NCBIGRCm37mm9NCBIm37
MGSCv363105,580,386 - 105,802,058 (+)NCBImm8
Celera3107,640,899 - 107,862,899 (+)NCBICelera
Cytogenetic Map3F2.2NCBI
Kcnd3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543515,227,615 - 15,431,190 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495543515,227,386 - 15,431,136 (-)NCBIChiLan1.0ChiLan1.0
KCND3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11125,702,654 - 125,910,075 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1125,696,907 - 125,909,814 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01114,433,203 - 114,651,894 (-)NCBIMhudiblu_PPA_v0panPan3
KCND3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11763,470,829 - 63,668,354 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1763,470,415 - 63,668,035 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1762,986,103 - 63,182,211 (+)NCBI
ROS_Cfam_1.01764,647,680 - 64,841,597 (+)NCBI
UMICH_Zoey_3.11763,378,372 - 63,574,346 (+)NCBI
UNSW_CanFamBas_1.01763,437,366 - 63,633,850 (+)NCBI
UU_Cfam_GSD_1.01764,235,078 - 64,431,380 (+)NCBI
Kcnd3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505816,850,374 - 17,059,824 (+)NCBI
SpeTri2.0NW_004936690417,907 - 627,025 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
KCND3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4108,401,895 - 108,621,509 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14108,394,687 - 108,621,514 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24118,542,614 - 118,763,673 (+)NCBISscrofa10.2Sscrofa10.2susScr3
KCND3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12021,618,365 - 21,833,443 (+)NCBI
ChlSab1.1 Ensembl2021,625,147 - 21,833,186 (+)Ensembl
Vero_WHO_p1.0NW_02366603836,641,070 - 36,861,725 (-)NCBI
Kcnd3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247727,482,462 - 7,694,316 (-)NCBI

Position Markers
D2Rat52  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22193,094,852 - 193,094,998 (+)MAPPERmRatBN7.2
Rnor_6.02208,081,050 - 208,081,195NCBIRnor6.0
Rnor_5.02227,502,003 - 227,502,148UniSTSRnor5.0
RGSC_v3.42200,866,667 - 200,866,813RGDRGSC3.4
RGSC_v3.42200,866,668 - 200,866,813UniSTSRGSC3.4
RGSC_v3.12200,829,422 - 200,829,567RGD
Celera2185,557,445 - 185,557,622UniSTS
RH 3.4 Map21366.3RGD
RH 3.4 Map21366.3UniSTS
RH 2.0 Map21028.7RGD
SHRSP x BN Map273.4398RGD
Cytogenetic Map2q34UniSTS
D2Got136  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22193,054,714 - 193,054,910 (+)MAPPERmRatBN7.2
Rnor_6.02208,040,915 - 208,041,110NCBIRnor6.0
Rnor_5.02227,461,868 - 227,462,063UniSTSRnor5.0
RGSC_v3.42200,826,441 - 200,826,748RGDRGSC3.4
RGSC_v3.42200,826,530 - 200,826,725UniSTSRGSC3.4
RGSC_v3.12200,789,284 - 200,789,479RGD
Celera2185,517,570 - 185,517,765UniSTS
RH 3.4 Map21358.4RGD
RH 3.4 Map21358.4UniSTS
Cytogenetic Map2q34UniSTS
D2Cebr1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22193,071,067 - 193,071,289 (+)MAPPERmRatBN7.2
Rnor_6.02208,057,268 - 208,057,488NCBIRnor6.0
Rnor_5.02227,478,221 - 227,478,441UniSTSRnor5.0
RGSC_v3.42200,842,883 - 200,843,104UniSTSRGSC3.4
Celera2185,533,858 - 185,534,077UniSTS
Cytogenetic Map2q34UniSTS
RH140120  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.22193,153,088 - 193,153,303 (+)MAPPERmRatBN7.2
Rnor_6.02208,138,471 - 208,138,685NCBIRnor6.0
Rnor_5.02227,559,424 - 227,559,638UniSTSRnor5.0
RGSC_v3.42200,924,314 - 200,924,528UniSTSRGSC3.4
Celera2185,615,233 - 185,615,447UniSTS
RH 3.4 Map21366.3UniSTS
Cytogenetic Map2q34UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)2140566078217498545Rat
70175BpQTLCluster3Blood pressure QTL cluster 34.128arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)2140566078217498545Rat
71113Cari2Carrageenan-induced inflammation QTL 22.70.009hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)2147522550217498710Rat
631266Bp132Blood pressure QTL 1320.0005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)246537589217498710Rat
61458Bp10Blood pressure QTL 103.42arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204003742231132207Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)243133606217498545Rat
61467Bp14Blood pressure QTL 142.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)243133606217498545Rat
61469Bp16Blood pressure QTL 165.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
70162Bp63Blood pressure QTL 635.64arterial blood pressure trait (VT:2000000)blood pressure measurement (CMO:0000003)2184730446229730446Rat
724568Uae13Urinary albumin excretion QTL 134.4urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)2149114878225501939Rat
1331734Bp204Blood pressure QTL 2043.61192arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2181990297240020001Rat
1331745Bp203Blood pressure QTL 2034.377arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2204585642235290110Rat
1331760Bp206Blood pressure QTL 2063.62454arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)256244671217498710Rat
1298074Bp164Blood pressure QTL 1640.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1298076Bp166Blood pressure QTL 1660.0009arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2141583337217498710Rat
1298080Bp163Blood pressure QTL 1630.02arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828049217498710Rat
1298083Bp158Blood pressure QTL 1582.62arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204003742231132207Rat
1298085Bp165Blood pressure QTL 1650.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)242776916217498710Rat
1331794Bp202Blood pressure QTL 2023.66819arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2147122993240020001Rat
1331805Cm29Cardiac mass QTL 293.50746heart mass (VT:0007028)heart wet weight (CMO:0000069)2147122993240020001Rat
2307174Activ3Activity QTL 34.830.000058locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)2183984665228984665Rat
1581499Esta2Estrogen-induced thymic atrophy QTL 2thymus mass (VT:0004954)thymus wet weight (CMO:0000855)2204585642243689611Rat
738013Alc15Alcohol consumption QTL 154.10.00022consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)2199380312244380312Rat
631501Bp101Blood pressure QTL 1012.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2157914409217498545Rat
631507Bp105Blood pressure QTL 1050.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2116075644228737869Rat
1302793Bw16Body weight QTL 1650.0001body mass (VT:0001259)body weight (CMO:0000012)2169852800217498545Rat
1641891Alcrsp17Alcohol response QTL 17response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557254121739Rat
1641925Alcrsp2Alcohol response QTL 2response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)2155965557237742948Rat
1598838Bp290Blood pressure QTL 2901.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2181522444226522444Rat
2301408Kidm36Kidney mass QTL 360.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)2205583921243562243Rat
2300189Bmd48Bone mineral density QTL 485.80.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)2194378622239378622Rat
634308Sach6Saccharin preference QTL 64.9taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)2116075644228737869Rat
1358356Srcrt1Stress Responsive Cort QTL13.66blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)2175403337239166203Rat
1578648Bss11Bone structure and strength QTL 114.7femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)2118446646227707979Rat
1300165Rf9Renal function QTL 93.28kidney glomerulus integrity trait (VT:0010546)index of glomerular damage (CMO:0001135)2138901276217498710Rat
1354605Rf48Renal function QTL 482.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)275687495221880419Rat
1354609Niddm62Non-insulin dependent diabetes mellitus QTL 624.720.000006insulin secretion trait (VT:0003564)plasma insulin level (CMO:0000342)2158159186217498710Rat
1354622Kidm16Kidney mass QTL 163kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)283819608239166203Rat
1354648Bp239Blood pressure QTL 2390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)266828236243550655Rat
1354649Kidm17Kidney mass QTL 172.9kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)283819608243901375Rat
2301966Bp322Blood pressure QTL 3223.58arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2158159186217498710Rat
1359022Ppulsi1Prepulse inhibition QTL 13.63prepulse inhibition trait (VT:0003088)acoustic startle response measurement (CMO:0001519)2142053350228984665Rat
1554319Bmd2Bone mineral density QTL 213.40.0001lumbar vertebra area (VT:0010570)lumbar vertebra cross-sectional area (CMO:0001689)2118446793228582621Rat
2306901Bp337Blood pressure QTL 3370.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2177680772243901375Rat
1358913Cm41Cardiac mass QTL 412.73heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1358917Cm42Cardiac mass QTL 422.82heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)223837491218957222Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2200453324236318668Rat
1359031Bp275Blood pressure QTL 275arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)2200453324236318668Rat
2293084Iddm26Insulin dependent diabetes mellitus QTL 262.9blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2188838511228984665Rat
61366Iddm3Insulin dependent diabetes mellitus QTL 34.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)2204585642249585642Rat
61374Edpm2Estrogen-dependent pituitary mass QTL 24.420.86pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)278321410217498710Rat
61398Bp50Blood pressure QTL 504.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2204585642249585642Rat
61417Cia10Collagen induced arthritis QTL 103.4joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)2194998627239998627Rat
4889834Pur24Proteinuria QTL 245.80.014total urine protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)2198704357217498710Rat
8694435Bw166Body weight QTL 16614.080.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)2197253963242253963Rat
7488929Bp366Blood pressure QTL 3660.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2199954569208081195Rat
9589044Scfw1Subcutaneous fat weight QTL 15.80.001subcutaneous adipose mass (VT:1000472)abdominal subcutaneous fat pad weight (CMO:0002069)2197253963242253963Rat
8694383Bw158Body weight QTL 1587.690.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)2197253963242253963Rat
7488925Bp364Blood pressure QTL 3640.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2174160958219160958Rat
7488927Bp365Blood pressure QTL 3650.008arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)2177339806222339806Rat
8662843Vetf9Vascular elastic tissue fragility QTL 92.05thoracic aorta molecular composition trait (VT:0010568)aorta wall extracellular elastin dry weight to aorta wall extracellular collagen weight ratio (CMO:0002003)2169852670243026643Rat
8662832Vetf7Vascular elastic tissue fragility QTL 73.5aorta elastin amount (VT:0003905)aorta wall extracellular elastin dry weight to aorta wall dry weight ratio (CMO:0002002)283754907237610852Rat
8694194Abfw1Abdominal fat weight QTL 111.70.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)2197253963242253963Rat
10755499Bp389Blood pressure QTL 3892.61arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)216679272245624402Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:293
Count of miRNA genes:139
Interacting mature miRNAs:153
Transcripts:ENSRNOT00000019997, ENSRNOT00000047827, ENSRNOT00000051835
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 64 6 18 1
Low 3 43 28 12 19 12 2 2 10 19 23 10 2
Below cutoff 29 29 29 6 9 10 6

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001270962 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001270963 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_031739 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB003587 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB008804 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB008805 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AB008806 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF334791 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CB581807 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474015 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK475885 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK477645 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000077 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  L48619 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  M74898 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U75448 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U92897 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000019997   ⟹   ENSRNOP00000019997
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2207,923,775 - 208,140,727 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000047827   ⟹   ENSRNOP00000041746
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2207,930,796 - 208,136,385 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000051835   ⟹   ENSRNOP00000049111
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl2207,923,775 - 208,140,727 (+)Ensembl
RefSeq Acc Id: NM_001270962   ⟹   NP_001257891
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22192,937,950 - 193,155,345 (+)NCBI
Rnor_6.02207,923,775 - 208,140,727 (+)NCBI
Rnor_5.02227,345,052 - 227,561,680 (+)NCBI
Celera2185,602,165 - 185,617,489 (+)NCBI
Sequence:
RefSeq Acc Id: NM_001270963   ⟹   NP_001257892
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22192,937,950 - 193,155,345 (+)NCBI
Rnor_6.02207,923,775 - 208,140,727 (+)NCBI
Rnor_5.02227,345,052 - 227,561,680 (+)NCBI
Celera2185,602,165 - 185,617,489 (+)NCBI
Sequence:
RefSeq Acc Id: NM_031739   ⟹   NP_113927
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.22192,937,950 - 193,155,345 (+)NCBI
Rnor_6.02207,923,775 - 208,140,727 (+)NCBI
Rnor_5.02227,345,052 - 227,561,680 (+)NCBI
RGSC_v3.42200,709,778 - 200,924,575 (+)RGD
Celera2185,602,165 - 185,617,489 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_113927   ⟸   NM_031739
- Peptide Label: isoform 3 precursor
- UniProtKB: Q62897 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001257891   ⟸   NM_001270962
- Peptide Label: isoform 1 precursor
- UniProtKB: Q62897 (UniProtKB/Swiss-Prot),   A0A0G2JSN5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001257892   ⟸   NM_001270963
- Peptide Label: isoform 2 precursor
- UniProtKB: Q62897 (UniProtKB/Swiss-Prot),   A0A0G2JSW5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000041746   ⟸   ENSRNOT00000047827
RefSeq Acc Id: ENSRNOP00000049111   ⟸   ENSRNOT00000051835
RefSeq Acc Id: ENSRNOP00000019997   ⟸   ENSRNOT00000019997
Protein Domains
BTB

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691642
Promoter ID:EPDNEW_R2167
Type:single initiation site
Name:Kcnd3_1
Description:potassium voltage-gated channel subfamily D member 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.02207,923,696 - 207,923,756EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:68394 AgrOrtholog
Ensembl Genes ENSRNOG00000014686 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000019997 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000041746 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000049111 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000019997 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000047827 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000051835 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 1.20.120.350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.710.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro BTB/POZ_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv4.3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  K_chnl_volt-dep_Kv4_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Shal-type_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SKP1/BTB/POZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  T1-type_BTB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  VG_K_chnl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Volt_channel_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:65195 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
NCBI Gene 65195 ENTREZGENE
PANTHER PTHR11537 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam BTB_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  DUF3399 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ion_trans UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Shal-type UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB KCND3 RGD
PhenoGen Kcnd3 PhenoGen
PRINTS KV43CHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  KVCHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SHALCHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART BTB UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF54695 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JSN5 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2JSW5 ENTREZGENE, UniProtKB/TrEMBL
  KCND3_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary O08723 UniProtKB/Swiss-Prot
  P70622 UniProtKB/Swiss-Prot
  Q63286 UniProtKB/Swiss-Prot
  Q99P42 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Kcnd3  potassium voltage-gated channel subfamily D member 3  Kcnd3  potassium channel, voltage-gated Shal-related subfamily D, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-01-26 Kcnd3  potassium channel, voltage-gated Shal-related subfamily D, member 3  Kcnd3  potassium voltage-gated channel, Shal-related subfamily, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-04-17 Kcnd3  potassium voltage-gated channel, Shal-related subfamily, member 3  LOC684161  similar to Potassium voltage-gated channel subfamily D member 3 (Voltage-gated potassium channel subunit Kv4.3)  Data Merged 737654 PROVISIONAL
2010-04-20 Kcnd3  potassium voltage-gated channel, Shal-related subfamily, member 3  Kcnd3  potassium voltage gated channel, Shal-related family, member 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC684161  similar to Potassium voltage-gated channel subfamily D member 3 (Voltage-gated potassium channel subunit Kv4.3)      Symbol and Name status set to provisional 70820 PROVISIONAL
2002-06-10 Kcnd3  potassium voltage gated channel, Shal-related family, member 3      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed in pyramidal cell layers of the hippocampus and the granule cell layer of the cerebellum 633155
gene_expression mRNA expressed in the rat cardiac myocytes 628469
gene_expression mRNA expressed in the rat cardiac myocytes 628470
gene_function forms voltage-gated outward current during repolarization in cardiac myocytes 628469
gene_function forms voltage-gated outward current during repolarization in cardiac myocytes 628470
gene_physical_interaction forms heteromultimer channels with Kcnd2 which helps in increasing the rate of recovery from inactivation 628469
gene_physical_interaction forms heteromultimer channels with Kcnd2 which helps in increasing the rate of recovery from inactivation 628470
gene_process in the left ventricle the mRNA level displays transmural gradient of the voltage-gated transient outward current density which impacts on cardiac functions such as contractility and impulse conduction 628469
gene_process in the left ventricle the mRNA level displays transmural gradient of the voltage-gated transient outward current density which impacts on cardiac functions such as contractility and impulse conduction 628470
gene_process contributes to the calcium independent voltage-gated transient outward current density in the right wall and septum of the ventricle 628469
gene_process contributes to the calcium independent voltage-gated transient outward current density in the right wall and septum of the ventricle 628470